Yifan Wu

Xiyu Qi, Yifan Wu, Yongqiang Mao et al.

The Segment Anything Model (SAM) exhibits remarkable versatility and zero-shot learning abilities, owing largely to its extensive training data (SA-1B). Recognizing SAM's dependency on manual guidance given its category-agnostic nature, we identified unexplored potential within few-shot semantic segmentation tasks for remote sensing imagery. This research introduces a structured framework designed for the automation of few-shot semantic segmentation. It utilizes the SAM model and facilitates a more efficient generation of semantically discernible segmentation outcomes. Central to our methodology is a novel automatic prompt learning approach, leveraging prior guided masks to produce coarse pixel-wise prompts for SAM. Extensive experiments on the DLRSD datasets underline the superiority of our approach, outperforming other available few-shot methodologies.

Xichen Ye, Yifan Wu, Yiwen Xu et al.

Deep supervised learning has achieved remarkable success across a wide range of tasks, yet it remains susceptible to overfitting when confronted with noisy labels. To address this issue, noise-robust loss functions offer an effective solution for enhancing learning in the presence of label noise. In this work, we systematically investigate the limitation of the recently proposed Active Passive Loss (APL), which employs Mean Absolute Error (MAE) as its passive loss function. Despite the robustness brought by MAE, one of its key drawbacks is that it pays equal attention to clean and noisy samples; this feature slows down convergence and potentially makes training difficult, particularly in large-scale datasets. To overcome these challenges, we introduce a novel loss function class, termed Normalized Negative Loss Functions (NNLFs), which serve as passive loss functions within the APL framework. NNLFs effectively address the limitations of MAE by concentrating more on memorized clean samples. By replacing MAE in APL with our proposed NNLFs, we enhance APL and present a new framework called Active Negative Loss (ANL). Moreover, in non-symmetric noise scenarios, we propose an entropy-based regularization technique to mitigate the vulnerability to the label imbalance. Extensive experiments demonstrate that the new loss functions adopted by our ANL framework can achieve better or comparable performance to state-of-the-art methods across various label noise types and in image segmentation tasks. The source code is available at: https://github.com/Virusdoll/Active-Negative-Loss.

Xichen Ye, Yifan Wu, Weizhong Zhang et al.

Previous research has shown that constraining the gradient of loss function with respect to model-predicted probabilities can enhance the model robustness against noisy labels. These methods typically specify a fixed optimal threshold for gradient clipping through validation data to obtain the desired robustness against noise. However, this common practice overlooks the dynamic distribution of gradients from both clean and noisy-labeled samples at different stages of training, significantly limiting the model capability to adapt to the variable nature of gradients throughout the training process. To address this issue, we propose a simple yet effective approach called Optimized Gradient Clipping (OGC), which dynamically adjusts the clipping threshold based on the ratio of noise gradients to clean gradients after clipping, estimated by modeling the distributions of clean and noisy samples. This approach allows us to modify the clipping threshold at each training step, effectively controlling the influence of noise gradients. Additionally, we provide statistical analysis to certify the noise-tolerance ability of OGC. Our extensive experiments across various types of label noise, including symmetric, asymmetric, instance-dependent, and real-world noise, demonstrate the effectiveness of our approach.

Yifan Wu, Jiyue Jiang, Xichen Ye et al.

Biological foundation models (BioFMs), pretrained on large-scale biological sequences, have recently shown strong potential in providing meaningful representations for diverse downstream bioinformatics tasks. However, such models often rely on millions to billions of training sequences and billions of parameters, resulting in prohibitive computational costs and significant barriers to reproducibility and accessibility, particularly for academic labs. To address these challenges, we investigate the feasibility of data pruning for BioFM pretraining and propose a post-hoc influence-guided data pruning framework tailored to biological domains. Our approach introduces a subset-based self-influence formulation that enables efficient estimation of sample importance at low computational cost, and builds upon it two simple yet effective selection strategies, namely Top-k Influence (Top I) and Coverage-Centric Influence (CCI). We empirically validate our method on two representative BioFMs, RNA-FM and ESM-C. For RNA, our framework consistently outperforms random selection baselines under an extreme pruning rate of over 99 percent, demonstrating its effectiveness. Furthermore, we show the generalizability of our framework on protein-related tasks using ESM-C. In particular, our coreset even outperforms random subsets that are ten times larger in both RNA and protein settings, revealing substantial redundancy in biological sequence datasets. These findings underscore the potential of influence-guided data pruning to substantially reduce the computational cost of BioFM pretraining, paving the way for more efficient, accessible, and sustainable biological AI research.